From af33a9b2132a45f4e6781a1ec67abc290a48b403 Mon Sep 17 00:00:00 2001 From: "depfu[bot]" <23717796+depfu[bot]@users.noreply.github.com> Date: Sat, 16 Apr 2022 23:10:32 +0000 Subject: [PATCH 01/17] Update eslint-config-airbnb-typescript to version 17.0.0 --- package-lock.json | 245 +++++++++++++++++++++++++++------------------- package.json | 2 +- 2 files changed, 143 insertions(+), 104 deletions(-) diff --git a/package-lock.json b/package-lock.json index 72f9a21..3e0ad06 100644 --- a/package-lock.json +++ b/package-lock.json @@ -1,12 +1,12 @@ { "name": "@madie/cql-antlr-parser", - "version": "1.0.0", + "version": "1.0.1", "lockfileVersion": 2, "requires": true, "packages": { "": { "name": "@madie/cql-antlr-parser", - "version": "1.0.0", + "version": "1.0.1", "license": "CREATIVE COMMONS ATTRIBUTION 4.0 INTERNATIONAL LICENSE", "dependencies": { "antlr4ts": "^0.5.0-alpha.4", @@ -17,7 +17,7 @@ "@typescript-eslint/eslint-plugin": "^5.9.0", "@typescript-eslint/parser": "^5.9.0", "eslint": "^8.6.0", - 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"node_modules/@typescript-eslint/experimental-utils": { - "version": "5.9.0", - "resolved": "https://registry.npmjs.org/@typescript-eslint/experimental-utils/-/experimental-utils-5.9.0.tgz", - "integrity": "sha512-ZnLVjBrf26dn7ElyaSKa6uDhqwvAi4jBBmHK1VxuFGPRAxhdi18ubQYSGA7SRiFiES3q9JiBOBHEBStOFkwD2g==", + "node_modules/@typescript-eslint/eslint-plugin/node_modules/@typescript-eslint/scope-manager": { + "version": "5.19.0", + "resolved": "https://registry.npmjs.org/@typescript-eslint/scope-manager/-/scope-manager-5.19.0.tgz", + "integrity": "sha512-Fz+VrjLmwq5fbQn5W7cIJZ066HxLMKvDEmf4eu1tZ8O956aoX45jAuBB76miAECMTODyUxH61AQM7q4/GOMQ5g==", "dev": true, "dependencies": { - "@types/json-schema": "^7.0.9", - "@typescript-eslint/scope-manager": "5.9.0", - "@typescript-eslint/types": "5.9.0", - "@typescript-eslint/typescript-estree": "5.9.0", - "eslint-scope": "^5.1.1", - "eslint-utils": "^3.0.0" + "@typescript-eslint/types": "5.19.0", + "@typescript-eslint/visitor-keys": "5.19.0" }, "engines": { "node": "^12.22.0 || ^14.17.0 || >=16.0.0" @@ -1318,9 +1314,36 @@ "funding": { "type": "opencollective", "url": "https://opencollective.com/typescript-eslint" + } + }, + "node_modules/@typescript-eslint/eslint-plugin/node_modules/@typescript-eslint/types": { + "version": "5.19.0", + "resolved": "https://registry.npmjs.org/@typescript-eslint/types/-/types-5.19.0.tgz", + "integrity": "sha512-zR1ithF4Iyq1wLwkDcT+qFnhs8L5VUtjgac212ftiOP/ZZUOCuuF2DeGiZZGQXGoHA50OreZqLH5NjDcDqn34w==", + "dev": true, + "engines": { + "node": "^12.22.0 || ^14.17.0 || >=16.0.0" }, - 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"@types/jest": "^27.4.0", - "@typescript-eslint/eslint-plugin": "^5.9.0", - "@typescript-eslint/parser": "^5.9.0", - "eslint": "^8.6.0", + "@types/jest": "^27.5.0", + "@typescript-eslint/eslint-plugin": "^5.22.0", + "@typescript-eslint/parser": "^5.22.0", + "eslint": "^8.13.0", "eslint-config-airbnb-typescript": "^17.0.0", - "eslint-config-prettier": "^8.3.0", + "eslint-config-prettier": "^8.5.0", "eslint-plugin-eslint-comments": "^3.2.0", - "eslint-plugin-import": "^2.25.4", - "eslint-plugin-jest": "^26.1.0", + "eslint-plugin-import": "^2.26.0", + "eslint-plugin-jest": "^26.1.5", "eslint-plugin-promise": "^6.0.0", - "jest": "^27.4.7", + "jest": "^27.5.1", "jest-extended": "^2.0.0", - "prettier": "^2.5.1", - "ts-jest": "^27.1.2", - "ts-node": "^10.4.0", - "typescript": "^4.5.4", + "prettier": "^2.6.2", + "ts-jest": "^27.1.4", + "ts-node": "^10.7.0", + "typescript": "^4.6.4", "typescript-eslint": "^0.0.1-alpha.0" }, "dependencies": { From 7e66576e30e42a64e86e248bb061c158c7761d1c Mon Sep 17 00:00:00 2001 From: "Gregory P. Akins" Date: Mon, 15 Aug 2022 14:38:59 -0400 Subject: [PATCH 03/17] MAT-3821: Removing test/* exclusion --- .codacy.yml | 1 - 1 file changed, 1 deletion(-) diff --git a/.codacy.yml b/.codacy.yml index 9913548..3ce074a 100644 --- a/.codacy.yml +++ b/.codacy.yml @@ -1,3 +1,2 @@ exclude_paths: - ".github/*" - - "test/**" From f39677482ba40f74aa9415119a1dafb334d5b5e7 Mon Sep 17 00:00:00 2001 From: "Gregory P. Akins" Date: Mon, 15 Aug 2022 15:26:13 -0400 Subject: [PATCH 04/17] MAT-3812: Adding pull request and modifying codecov rules for codacy and codeCov --- .github/pull_request_template.md | 27 ++++++++++++++++++++++++ .github/workflows/unit_test_coverage.yml | 18 ++++++++++++++++ 2 files changed, 45 insertions(+) create mode 100644 .github/pull_request_template.md diff --git a/.github/pull_request_template.md b/.github/pull_request_template.md new file mode 100644 index 0000000..0fc08aa --- /dev/null +++ b/.github/pull_request_template.md @@ -0,0 +1,27 @@ +## MADiE PR + +Jira Ticket: [MAT-0000](https://jira.cms.gov/browse/MAT-0000) +(Optional) Related Tickets: + +### Summary + +### All Submissions +* [ ] This PR has the JIRA linked. +* [ ] Required tests are included +* [ ] No extemporaneous files are included (i.e Complied files or testing results) +* [ ] This PR is in to the **correct branch**. +* [ ] All Documentation as needed for this PR is Complete (or noted in a TODO or other Ticket) +* [ ] Any breaking changes or failing automation are noted by placing a comment on this PR. + +### DevSecOps +If there is a question if this PR has a security or infrastructure impact, please contact the Security or DevOps engineer assigned to this project to discuss it further. + +* [ ] This PR has NO significant security impact (i.e Changing auth methods, Adding a new user type, Adding a required but vulnerable package) +* [ ] All CDN/Web dependancies are hosted internally (i.e MADiE-Root Repo) + +### Reviewers +By Approving this PR you are attesting to the following: + +* Code is maintainable and reusable, reuses existing code and infrastructure where appropriate, and accomplishes the task’s purpose +* The tests appropriately test the new code, including edge cases +* If you have any concerns they are brought up either to the developer assigned, security engineer, or leads diff --git a/.github/workflows/unit_test_coverage.yml b/.github/workflows/unit_test_coverage.yml index 88f958a..996f693 100644 --- a/.github/workflows/unit_test_coverage.yml +++ b/.github/workflows/unit_test_coverage.yml @@ -70,3 +70,21 @@ jobs: with: project-token: ${{ secrets.CODACY_PROJECT_TOKEN }} coverage-reports: lcov.info + + upload-codecov-coverage: + name: Upload code coverage to Codecov + needs: build + runs-on: ubuntu-latest + steps: + - name: Checkout repository + uses: actions/checkout@v2 + - name: Download coverage artifact + uses: actions/download-artifact@v2 + with: + name: coverage + + - name: Upload code coverage to Codecov + uses: codecov/codecov-action@v2 + with: + file: lcov.info + fail_ci_if_error: truef From 59f5ddfe63a97e11b51f215ab01a01d31d3b51d2 Mon Sep 17 00:00:00 2001 From: "Gregory P. Akins" Date: Mon, 15 Aug 2022 15:43:43 -0400 Subject: [PATCH 05/17] MAT-3821: uploading artifact --- .github/workflows/unit_test_coverage.yml | 8 +++++++- 1 file changed, 7 insertions(+), 1 deletion(-) diff --git a/.github/workflows/unit_test_coverage.yml b/.github/workflows/unit_test_coverage.yml index 996f693..056a6fc 100644 --- a/.github/workflows/unit_test_coverage.yml +++ b/.github/workflows/unit_test_coverage.yml @@ -44,7 +44,7 @@ jobs: run: npm ci - name: Audit dependencies for security vulnerabilities - run: npm audit + run: npm audit --production - name: Lint the source code run: npm run-script lint @@ -55,6 +55,12 @@ jobs: - name: Execute test coverage run: npm run-script coverage + - name: Store the coverage report as an artifact + uses: actions/upload-artifact@v2 + with: + name: coverage + path: coverage/lcov.info + upload-codacy-coverage: name: Upload code coverage to Codacy needs: build From 540d27191e0633bdb40f100659b67c0ade3b7442 Mon Sep 17 00:00:00 2001 From: "Gregory P. Akins" Date: Wed, 16 Nov 2022 09:38:14 -0500 Subject: [PATCH 06/17] slack: Adding information about grammar files to README --- README.md | 2 ++ 1 file changed, 2 insertions(+) diff --git a/README.md b/README.md index 66c1553..69e6df3 100644 --- a/README.md +++ b/README.md @@ -8,3 +8,5 @@ import {CqlAntlr, CqlResult} from "cql-antlr-parser"; const result: CqlResult = new CqlAntlr(cqlString).parse();` ``` + +Initial grammar files (cql.g4 & fhirPath.g4) come from https://cql.hl7.org/grammar.html From 88df867e7ca9bb2e0ae98b10506ba1efdce8eb78 Mon Sep 17 00:00:00 2001 From: adongare Date: Tue, 23 May 2023 17:49:25 -0400 Subject: [PATCH 07/17] MAT-5567 get all the retrieves --- src/CqlAntlr.ts | 1 + src/CqlAntlrListener.ts | 13 +++++++++++++ src/CqlRetrieveCreator.ts | 17 +++++++++++++++++ src/dto/CqlResult.ts | 2 ++ src/dto/CqlRetrieve.ts | 6 ++++++ test/CqlAntlr.test.ts | 1 + 6 files changed, 40 insertions(+) create mode 100644 src/CqlRetrieveCreator.ts create mode 100644 src/dto/CqlRetrieve.ts diff --git a/src/CqlAntlr.ts b/src/CqlAntlr.ts index 77cbe30..a4fb3e7 100644 --- a/src/CqlAntlr.ts +++ b/src/CqlAntlr.ts @@ -35,6 +35,7 @@ class CqlAntlr { identifiers: [], expressionDefinitions: [], errors: [], + retrieves: [], }; } diff --git a/src/CqlAntlrListener.ts b/src/CqlAntlrListener.ts index c58cee6..4b20978 100644 --- a/src/CqlAntlrListener.ts +++ b/src/CqlAntlrListener.ts @@ -8,6 +8,7 @@ import { IncludeDefinitionContext, LibraryDefinitionContext, ParameterDefinitionContext, + RetrieveContext, UsingDefinitionContext, ValuesetDefinitionContext } from "../generated"; @@ -28,6 +29,8 @@ import CqlExpressionDefinitionCreator from "./CqlExpressionDefinitionCreator"; import {CqlCode} from "./dto"; import CqlIdentifier from "./dto/CqlIdentifier"; import CqlIdentifierCreator from "./CqlIdentifierCreator"; +import CqlRetrieve from "./dto/CqlRetrieve"; +import CqlRetrieveCreator from "./CqlRetrieveCreator"; export default class CqlAntlrListener implements cqlListener { constructor(private cqlResult: CqlResult) { @@ -103,4 +106,14 @@ export default class CqlAntlrListener implements cqlListener { this.cqlResult.identifiers.push(identifier); } } + + enterRetrieve(ctx: RetrieveContext): void { + if (ctx.terminology() == undefined) { + return; + } + const cqlRetrieve: CqlRetrieve | undefined = new CqlRetrieveCreator(ctx).buildDao(); + if (cqlRetrieve) { + this.cqlResult.retrieves.push(cqlRetrieve); + } + } } diff --git a/src/CqlRetrieveCreator.ts b/src/CqlRetrieveCreator.ts new file mode 100644 index 0000000..55abef3 --- /dev/null +++ b/src/CqlRetrieveCreator.ts @@ -0,0 +1,17 @@ +import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; +import CreatorBase from "./CreatorBase"; +import {cqlLexer} from "../generated"; +import CqlRetrieve from "./dto/CqlRetrieve"; + +export default class CqlRetrieveCreator extends CreatorBase { + constructor(ctx: ParserRuleContext) { + super(ctx, {} as CqlRetrieve); + } + + protected build(): CqlRetrieve { + this.cqlDao.name = this.findChildText(cqlLexer.QUOTEDIDENTIFIER); + this.cqlDao.terminology = this.findChildText(cqlLexer.QUOTEDIDENTIFIER, 2); + this.cqlDao.hits = 0; + return this.cqlDao; + } +} diff --git a/src/dto/CqlResult.ts b/src/dto/CqlResult.ts index 998ab9d..dd0771b 100644 --- a/src/dto/CqlResult.ts +++ b/src/dto/CqlResult.ts @@ -8,6 +8,7 @@ import CqlContext from "./CqlContext"; import CqlExpressionDefinition from "./CqlExpressionDefinition"; import CqlError from "./CqlError"; import CqlIdentifier from "./CqlIdentifier"; +import CqlRetrieve from "./CqlRetrieve"; export default interface CqlResult { library?: CqlVersion; @@ -20,6 +21,7 @@ export default interface CqlResult { identifiers: CqlIdentifier[]; context?: CqlContext; expressionDefinitions: CqlExpressionDefinition[]; + retrieves: CqlRetrieve[]; errors: CqlError[]; } diff --git a/src/dto/CqlRetrieve.ts b/src/dto/CqlRetrieve.ts new file mode 100644 index 0000000..a2c1aed --- /dev/null +++ b/src/dto/CqlRetrieve.ts @@ -0,0 +1,6 @@ +import CqlText from "./CqlText"; + +export default interface CqlRetrieve extends CqlText { + terminology?: string; + hits: number; +} diff --git a/test/CqlAntlr.test.ts b/test/CqlAntlr.test.ts index 66843a3..5e7975f 100644 --- a/test/CqlAntlr.test.ts +++ b/test/CqlAntlr.test.ts @@ -27,6 +27,7 @@ describe("test antlr", () => { expect(cqlResult.context?.name).toEqual("Patient"); expect(cqlResult.expressionDefinitions.length).toEqual(6); + expect(cqlResult.retrieves.length).toEqual(1); }); it("reports syntactical errors", () => { From f30e8b37351baa44461f4db472f264aa781db6ad Mon Sep 17 00:00:00 2001 From: adongare Date: Tue, 23 May 2023 18:04:03 -0400 Subject: [PATCH 08/17] MAT-5567 test case --- package-lock.json | 4 ++-- package.json | 2 +- test/CqlAntlr.test.ts | 2 +- test/testCql.ts | 5 ++++- 4 files changed, 8 insertions(+), 5 deletions(-) diff --git a/package-lock.json b/package-lock.json index 6a809f4..2ff8a57 100644 --- a/package-lock.json +++ b/package-lock.json @@ -1,12 +1,12 @@ { "name": "@madie/cql-antlr-parser", - "version": "1.0.1", + "version": "1.0.2", "lockfileVersion": 2, "requires": true, "packages": { "": { "name": "@madie/cql-antlr-parser", - "version": "1.0.1", + "version": "1.0.2", "license": "CREATIVE COMMONS ATTRIBUTION 4.0 INTERNATIONAL LICENSE", "dependencies": { "antlr4ts": "^0.5.0-alpha.4", diff --git a/package.json b/package.json index be3aed2..d39d70e 100644 --- a/package.json +++ b/package.json @@ -1,6 +1,6 @@ { "name": "@madie/cql-antlr-parser", - "version": "1.0.1", + "version": "1.0.2", "description": "Antlr Parsing of CQL in typescript", "publishConfig": { "access": "public" diff --git a/test/CqlAntlr.test.ts b/test/CqlAntlr.test.ts index 5e7975f..033fdf2 100644 --- a/test/CqlAntlr.test.ts +++ b/test/CqlAntlr.test.ts @@ -26,7 +26,7 @@ describe("test antlr", () => { expect(cqlResult.context?.name).toEqual("Patient"); - expect(cqlResult.expressionDefinitions.length).toEqual(6); + expect(cqlResult.expressionDefinitions.length).toEqual(7); expect(cqlResult.retrieves.length).toEqual(1); }); diff --git a/test/testCql.ts b/test/testCql.ts index fbf1ba7..fa54ec2 100644 --- a/test/testCql.ts +++ b/test/testCql.ts @@ -38,7 +38,10 @@ define "Denominator Exclusion": TJC."Ischemic Stroke Encounters with Discharge Disposition" union TJC."Comfort Measures during Hospitalization" - +define "Encounter Performed": + ["Encounter, Performed"] EP + where EP.relevantPeriod not null + define "Antithrombotic Not Given at Discharge": ["MedicationRequest": medication in "Antithrombotic Therapy"] NoAntithromboticDischarge where NoAntithromboticDischarge.doNotPerform is true From 41cd822243f9b8f8f6fcdacb99bab969d28a6d2e Mon Sep 17 00:00:00 2001 From: adongare Date: Wed, 24 May 2023 07:56:57 -0400 Subject: [PATCH 09/17] MAT-5567 address review feedback --- src/CqlAntlrListener.ts | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/CqlAntlrListener.ts b/src/CqlAntlrListener.ts index 4b20978..6f5e8ad 100644 --- a/src/CqlAntlrListener.ts +++ b/src/CqlAntlrListener.ts @@ -108,7 +108,7 @@ export default class CqlAntlrListener implements cqlListener { } enterRetrieve(ctx: RetrieveContext): void { - if (ctx.terminology() == undefined) { + if (ctx.terminology() === undefined) { return; } const cqlRetrieve: CqlRetrieve | undefined = new CqlRetrieveCreator(ctx).buildDao(); From ac512ceb09318fbd6532f35b4e4c001073c1d9e1 Mon Sep 17 00:00:00 2001 From: riddhi-desai Date: Thu, 16 Nov 2023 11:48:22 -0500 Subject: [PATCH 10/17] Update package-lock.json npm audit to fix critical vuln in MAT-6454 --- package-lock.json | 727 ++++++++++++++++++++++++++++++---------------- 1 file changed, 479 insertions(+), 248 deletions(-) diff --git a/package-lock.json b/package-lock.json index 2ff8a57..a6c1383 100644 --- a/package-lock.json +++ b/package-lock.json @@ -33,17 +33,89 @@ } }, "node_modules/@babel/code-frame": { - "version": "7.16.7", - "resolved": 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"requires": { "lru-cache": "^6.0.0" @@ -10313,14 +10533,15 @@ } }, "tough-cookie": { - "version": "4.0.0", - "resolved": "https://registry.npmjs.org/tough-cookie/-/tough-cookie-4.0.0.tgz", - "integrity": "sha512-tHdtEpQCMrc1YLrMaqXXcj6AxhYi/xgit6mZu1+EDWUn+qhUf8wMQoFIy9NXuq23zAwtcB0t/MjACGR18pcRbg==", + "version": "4.1.3", + "resolved": "https://registry.npmjs.org/tough-cookie/-/tough-cookie-4.1.3.tgz", + "integrity": "sha512-aX/y5pVRkfRnfmuX+OdbSdXvPe6ieKX/G2s7e98f4poJHnqH3281gDPm/metm6E/WRamfx7WC4HUqkWHfQHprw==", "dev": true, "requires": { "psl": "^1.1.33", "punycode": "^2.1.1", - "universalify": "^0.1.2" + "universalify": "^0.2.0", + "url-parse": "^1.5.3" } }, "tr46": { @@ -10390,9 +10611,9 @@ }, "dependencies": { "json5": { - "version": "1.0.1", - "resolved": "https://registry.npmjs.org/json5/-/json5-1.0.1.tgz", - "integrity": "sha512-aKS4WQjPenRxiQsC93MNfjx+nbF4PAdYzmd/1JIj8HYzqfbu86beTuNgXDzPknWk0n0uARlyewZo4s++ES36Ow==", + "version": "1.0.2", + "resolved": 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"sha512-WypcfiRhfeUP9vvF0j6rw0J3hrWrw6iZv3+22h6iRMJ/8z1Tj6XfLP4DsUix5MhMPnXpiHDoKyoZ/bdCkwBCiQ==", + "dev": true, + "requires": { + "querystringify": "^2.1.1", + "requires-port": "^1.0.0" + } + }, "v8-compile-cache": { "version": "2.3.0", "resolved": "https://registry.npmjs.org/v8-compile-cache/-/v8-compile-cache-2.3.0.tgz", @@ -10603,9 +10834,9 @@ } }, "word-wrap": { - "version": "1.2.3", - "resolved": "https://registry.npmjs.org/word-wrap/-/word-wrap-1.2.3.tgz", - "integrity": "sha512-Hz/mrNwitNRh/HUAtM/VT/5VH+ygD6DV7mYKZAtHOrbs8U7lvPS6xf7EJKMF0uW1KJCl0H701g3ZGus+muE5vQ==", + "version": "1.2.5", + "resolved": "https://registry.npmjs.org/word-wrap/-/word-wrap-1.2.5.tgz", + "integrity": "sha512-BN22B5eaMMI9UMtjrGd5g5eCYPpCPDUy0FJXbYsaT5zYxjFOckS53SQDE3pWkVoWpHXVb3BrYcEN4Twa55B5cA==", "dev": true }, "wrap-ansi": { From 1817a3ea477d5295dabbab11e195a8084add97ac Mon Sep 17 00:00:00 2001 From: sb-benohe <71290292+sb-benohe@users.noreply.github.com> Date: Thu, 16 Nov 2023 13:33:32 -0500 Subject: [PATCH 11/17] Update npm-publish.yml --- .github/workflows/npm-publish.yml | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/.github/workflows/npm-publish.yml b/.github/workflows/npm-publish.yml index a28b3af..3714f85 100644 --- a/.github/workflows/npm-publish.yml +++ b/.github/workflows/npm-publish.yml @@ -12,13 +12,13 @@ jobs: - name: Checkout repository uses: actions/checkout@v2 - - name: Use Node.js 14.x - uses: actions/setup-node@v2-beta + - name: Use Node.js 20.x + uses: actions/setup-node@v3 with: - node-version: 14.x + node-version: 20.x - name: Cache node modules - uses: actions/cache@v2 + uses: actions/cache@v3 env: cache-name: cache-node-modules with: From c07560ceedbea93a7fd6bc940ce43cfdbf37bd10 Mon Sep 17 00:00:00 2001 From: sb-benohe <71290292+sb-benohe@users.noreply.github.com> Date: Thu, 16 Nov 2023 13:34:41 -0500 Subject: [PATCH 12/17] Update unit_test_coverage.yml --- .github/workflows/unit_test_coverage.yml | 20 ++++++++++---------- 1 file changed, 10 insertions(+), 10 deletions(-) diff --git a/.github/workflows/unit_test_coverage.yml b/.github/workflows/unit_test_coverage.yml index 056a6fc..636d273 100644 --- a/.github/workflows/unit_test_coverage.yml +++ b/.github/workflows/unit_test_coverage.yml @@ -23,13 +23,13 @@ jobs: - name: Checkout repository uses: actions/checkout@v2 - - name: Use Node.js 16.x - uses: actions/setup-node@v2-beta + - name: Use Node.js 20.x + uses: actions/setup-node@v3 with: - node-version: 16.x + node-version: 20.x - name: Cache node modules - uses: actions/cache@v2 + uses: actions/cache@v3 env: cache-name: cache-node-modules with: @@ -56,7 +56,7 @@ jobs: run: npm run-script coverage - name: Store the coverage report as an artifact - uses: actions/upload-artifact@v2 + uses: actions/upload-artifact@v3 with: name: coverage path: coverage/lcov.info @@ -67,7 +67,7 @@ jobs: runs-on: ubuntu-latest steps: - name: Download coverage artifact - uses: actions/download-artifact@v2 + uses: actions/download-artifact@v3 with: name: coverage @@ -83,14 +83,14 @@ jobs: runs-on: ubuntu-latest steps: - name: Checkout repository - uses: actions/checkout@v2 + uses: actions/checkout@v3 - name: Download coverage artifact - uses: actions/download-artifact@v2 + uses: actions/download-artifact@v3 with: name: coverage - name: Upload code coverage to Codecov - uses: codecov/codecov-action@v2 + uses: codecov/codecov-action@v3 with: file: lcov.info - fail_ci_if_error: truef + fail_ci_if_error: true From c27e60e3afbb4a36b4f5d88c04c8c739f4647da4 Mon Sep 17 00:00:00 2001 From: adongare Date: Wed, 12 Jun 2024 12:07:37 -0400 Subject: [PATCH 13/17] MAT-7246 get valueset version --- package-lock.json | 28 ++++++++++++++-------------- src/CqlAntlrListener.ts | 6 +++--- src/CqlCodeValueSystemCreator.ts | 13 ++++++++++++- src/dto/CqlValueSet.ts | 4 ++-- test/CqlAntlr.test.ts | 19 ++++++++++++++++--- test/testCql.ts | 11 +++++++++-- 6 files changed, 56 insertions(+), 25 deletions(-) diff --git a/package-lock.json b/package-lock.json index a6c1383..43c21d2 100644 --- a/package-lock.json +++ b/package-lock.json @@ -1885,12 +1885,12 @@ } }, "node_modules/braces": { - "version": "3.0.2", - "resolved": "https://registry.npmjs.org/braces/-/braces-3.0.2.tgz", - "integrity": "sha512-b8um+L1RzM3WDSzvhm6gIz1yfTbBt6YTlcEKAvsmqCZZFw46z626lVj9j1yEPW33H5H+lBQpZMP1k8l+78Ha0A==", + "version": "3.0.3", + "resolved": "https://registry.npmjs.org/braces/-/braces-3.0.3.tgz", + "integrity": "sha512-yQbXgO/OSZVD2IsiLlro+7Hf6Q18EJrKSEsdoMzKePKXct3gvD8oLcOQdIzGupr5Fj+EDe8gO/lxc1BzfMpxvA==", "dev": true, "dependencies": { - "fill-range": "^7.0.1" + "fill-range": "^7.1.1" }, "engines": { "node": ">=8" @@ -3056,9 +3056,9 @@ } }, "node_modules/fill-range": { - "version": "7.0.1", - "resolved": "https://registry.npmjs.org/fill-range/-/fill-range-7.0.1.tgz", - "integrity": "sha512-qOo9F+dMUmC2Lcb4BbVvnKJxTPjCm+RRpe4gDuGrzkL7mEVl/djYSu2OdQ2Pa302N4oqkSg9ir6jaLWJ2USVpQ==", + "version": "7.1.1", + "resolved": "https://registry.npmjs.org/fill-range/-/fill-range-7.1.1.tgz", + "integrity": "sha512-YsGpe3WHLK8ZYi4tWDg2Jy3ebRz2rXowDxnld4bkQB00cc/1Zw9AWnC0i9ztDJitivtQvaI9KaLyKrc+hBW0yg==", "dev": true, "dependencies": { "to-regex-range": "^5.0.1" @@ -7672,12 +7672,12 @@ } }, "braces": { - "version": "3.0.2", - "resolved": "https://registry.npmjs.org/braces/-/braces-3.0.2.tgz", - "integrity": "sha512-b8um+L1RzM3WDSzvhm6gIz1yfTbBt6YTlcEKAvsmqCZZFw46z626lVj9j1yEPW33H5H+lBQpZMP1k8l+78Ha0A==", + "version": "3.0.3", + "resolved": "https://registry.npmjs.org/braces/-/braces-3.0.3.tgz", + "integrity": "sha512-yQbXgO/OSZVD2IsiLlro+7Hf6Q18EJrKSEsdoMzKePKXct3gvD8oLcOQdIzGupr5Fj+EDe8gO/lxc1BzfMpxvA==", "dev": true, "requires": { - "fill-range": "^7.0.1" + "fill-range": "^7.1.1" } }, "browser-process-hrtime": { @@ -8571,9 +8571,9 @@ } }, "fill-range": { - "version": "7.0.1", - "resolved": "https://registry.npmjs.org/fill-range/-/fill-range-7.0.1.tgz", - "integrity": "sha512-qOo9F+dMUmC2Lcb4BbVvnKJxTPjCm+RRpe4gDuGrzkL7mEVl/djYSu2OdQ2Pa302N4oqkSg9ir6jaLWJ2USVpQ==", + "version": "7.1.1", + "resolved": "https://registry.npmjs.org/fill-range/-/fill-range-7.1.1.tgz", + "integrity": "sha512-YsGpe3WHLK8ZYi4tWDg2Jy3ebRz2rXowDxnld4bkQB00cc/1Zw9AWnC0i9ztDJitivtQvaI9KaLyKrc+hBW0yg==", "dev": true, "requires": { "to-regex-range": "^5.0.1" diff --git a/src/CqlAntlrListener.ts b/src/CqlAntlrListener.ts index 6f5e8ad..18d9431 100644 --- a/src/CqlAntlrListener.ts +++ b/src/CqlAntlrListener.ts @@ -65,10 +65,10 @@ export default class CqlAntlrListener implements cqlListener { } enterValuesetDefinition(ctx: ValuesetDefinitionContext): void { - const cqlCode: CqlValueSet | undefined = new CqlValueSetSystemCreator(ctx).buildDao(); + const cqlValueSet: CqlValueSet | undefined = new CqlValueSetSystemCreator(ctx, this.cqlResult.using?.name).buildDao(); - if (cqlCode) { - this.cqlResult.valueSets.push(cqlCode); + if (cqlValueSet) { + this.cqlResult.valueSets.push(cqlValueSet); } } diff --git a/src/CqlCodeValueSystemCreator.ts b/src/CqlCodeValueSystemCreator.ts index 0a820ea..5c85e96 100644 --- a/src/CqlCodeValueSystemCreator.ts +++ b/src/CqlCodeValueSystemCreator.ts @@ -3,14 +3,25 @@ import CreatorBase from "./CreatorBase"; import CqlValueSet from "./dto/CqlValueSet"; import {cqlLexer} from "../generated"; +type StringOrUndefined = undefined | string; + export default class CqlValueSetSystemCreator extends CreatorBase { - constructor(ctx: ParserRuleContext) { + model: StringOrUndefined + + constructor(ctx: ParserRuleContext, model: StringOrUndefined) { super(ctx, {} as CqlValueSet); + this.model = model; } protected build(): CqlValueSet { this.cqlDao.name = this.findChildText(cqlLexer.QUOTEDIDENTIFIER); this.cqlDao.url = this.findChildText(cqlLexer.STRING); + if (this.model === "QDM") { + this.cqlDao.version = this.findChildText(cqlLexer.STRING, 2); + } else { + const tokens = this.cqlDao.url?.split("|"); + this.cqlDao.version = tokens?.length === 2 ? tokens[1] : undefined + } this.cqlDao.hits = 0; return this.cqlDao; } diff --git a/src/dto/CqlValueSet.ts b/src/dto/CqlValueSet.ts index 502698c..93ea69a 100644 --- a/src/dto/CqlValueSet.ts +++ b/src/dto/CqlValueSet.ts @@ -1,6 +1,6 @@ -import CqlText from "./CqlText"; +import CqlVersion from "./CqlVersion"; -export default interface CqlValueSet extends CqlText { +export default interface CqlValueSet extends CqlVersion { url?: string; hits: number; } diff --git a/test/CqlAntlr.test.ts b/test/CqlAntlr.test.ts index 033fdf2..975d2ae 100644 --- a/test/CqlAntlr.test.ts +++ b/test/CqlAntlr.test.ts @@ -1,5 +1,6 @@ import { - testCql, + fhirTestCql, + qdmTestCql, cqlWithSyntaxErrors, cqlWithUsedParam, cqlWithUsedDefines, @@ -13,8 +14,8 @@ import { CqlAntlr } from "../src"; import CqlResult from "../src/dto/CqlResult"; describe("test antlr", () => { - it("parse", () => { - const cqlAntlr = new CqlAntlr(testCql); + it("parse fhir cql", () => { + const cqlAntlr = new CqlAntlr(fhirTestCql); const cqlResult: CqlResult = cqlAntlr.parse(); @@ -29,6 +30,18 @@ describe("test antlr", () => { expect(cqlResult.expressionDefinitions.length).toEqual(7); expect(cqlResult.retrieves.length).toEqual(1); }); + + it("parse qdm cql", () => { + const cqlAntlr = new CqlAntlr(qdmTestCql); + const cqlResult: CqlResult = cqlAntlr.parse(); + + expect(cqlResult.using?.name).toBe("QDM"); + expect(cqlResult.valueSets.length).toBe(2); + expect(cqlResult.valueSets[0].name).toBe("\"Adolescent depression screening assessment\""); + expect(cqlResult.valueSets[0].version).toBeUndefined(); + expect(cqlResult.valueSets[1].name).toBe("\"Adolescent depression screening assessment with version\""); + expect(cqlResult.valueSets[1].version).toBe("'urn:hl7:version:20240307'"); + }); it("reports syntactical errors", () => { const cqlAntlr = new CqlAntlr(cqlWithSyntaxErrors); diff --git a/test/testCql.ts b/test/testCql.ts index fa54ec2..761f1b6 100644 --- a/test/testCql.ts +++ b/test/testCql.ts @@ -1,4 +1,4 @@ -const testCql = `library TJCOverall_FHIR4 version '4.0.000' +const fhirTestCql = `library TJCOverall_FHIR4 version '4.0.000' using FHIR version '4.0.0' // NOTE: BTR 2019-07-30: Updated version dependencies @@ -52,6 +52,12 @@ define "Antithrombotic Not Given at Discharge": and NoAntithromboticDischarge.status = 'completed' and NoAntithromboticDischarge.intent = 'order' `; +const qdmTestCql = ` +library PreventiveCareScreeningFollowUpPlan version '0.0.000' +using QDM version '5.6' +valueset "Adolescent depression screening assessment": 'urn:oid:2.16.840.1.113762.1.4.1260.162' +valueset "Adolescent depression screening assessment with version": 'urn:oid:2.16.840.1.113762.1.4.1260.162' version 'urn:hl7:version:20240307' +` const cqlWithSyntaxErrors = `library TJCOverall_FHIR4 version '4.0.000' @@ -170,7 +176,8 @@ define FactorialOfFive: ` export { - testCql, + fhirTestCql, + qdmTestCql, cqlWithSyntaxErrors, cqlWithUsedParam, cqlWithUsedDefines, From e6ee5406f3accd7317e5227eff6d048c8e418918 Mon Sep 17 00:00:00 2001 From: Greg Akins Date: Wed, 18 Sep 2024 08:59:48 -0400 Subject: [PATCH 14/17] MAT-4844: Added ability to look for tokens with multiple lexical types --- src/AntlrUtils.ts | 20 ++++++++++++++++++-- src/CqlAntlr.ts | 4 ++-- src/CqlAntlrListener.ts | 4 ++-- src/CqlExpressionDefinitionCreator.ts | 13 +++++++------ src/CreatorBase.ts | 10 ++++++++++ test/CqlAntlr.test.ts | 22 +++++++++++++++++++++- test/testCql.ts | 16 +++++++++++++++- 7 files changed, 75 insertions(+), 14 deletions(-) diff --git a/src/AntlrUtils.ts b/src/AntlrUtils.ts index 17e924d..2a28024 100644 --- a/src/AntlrUtils.ts +++ b/src/AntlrUtils.ts @@ -13,12 +13,26 @@ export default class AntlrUtils { return undefined; } + static findChildTextByTypes(children: ParseTree[] | undefined, + lexerType: number[], + occurrence = 1): string | undefined { + let result: string | undefined = undefined; + lexerType.forEach(lexType => { + const foundChild: string | undefined = this.findChildText(children, lexType, occurrence); + if (foundChild) { + console.log("Finding the result", foundChild); + + result = foundChild ; + } + }) + return result; + } + static findChildText(children: ParseTree[] | undefined, lexerType: number, occurrence = 1): string | undefined { if (children && children.length > 0) { - const foundChild = AntlrUtils.findChild(children, lexerType, occurrence); - + const foundChild = AntlrUtils.findChild(children, lexerType, occurrence); if (foundChild) { return AntlrUtils.findText(foundChild as ParserRuleContext); } @@ -37,6 +51,7 @@ export default class AntlrUtils { return children.find((child: ParseTree) => { if (AntlrUtils.isTargetType(child, lexerType)) { + found += 1; if (found === occurrence) { return true; @@ -48,6 +63,7 @@ export default class AntlrUtils { private static isTargetType(child: ParseTree, targetType: number): boolean { if (child instanceof ParserRuleContext) { + return child.start.type === targetType; } return false; diff --git a/src/CqlAntlr.ts b/src/CqlAntlr.ts index a4fb3e7..57c8d90 100644 --- a/src/CqlAntlr.ts +++ b/src/CqlAntlr.ts @@ -10,12 +10,12 @@ class CqlAntlr { constructor(private cql: string) {} parse(): CqlResult { + console.log("Before parse"); const result = CqlAntlr.initCqlResult(); const tree: LibraryContext = this.buildTree(result); - const listener: cqlListener = new CqlAntlrListener(result); ParseTreeWalker.DEFAULT.walk(listener, tree); - + console.log("After parse", result); /** * Disabled. Only partially implemented and would be * a duplicate of checks performed by the CQL-to-ELM Translator. diff --git a/src/CqlAntlrListener.ts b/src/CqlAntlrListener.ts index 18d9431..db365a1 100644 --- a/src/CqlAntlrListener.ts +++ b/src/CqlAntlrListener.ts @@ -74,7 +74,7 @@ export default class CqlAntlrListener implements cqlListener { enterCodeDefinition(ctx: CodeDefinitionContext): void { const cqlCode: CqlCode | undefined = new CqlCodeCreator(ctx).buildDao(); - + console.log("#### build cqlCode code", cqlCode); if (cqlCode) { this.cqlResult.codes.push(cqlCode); } @@ -94,7 +94,7 @@ export default class CqlAntlrListener implements cqlListener { enterExpressionDefinition(ctx: ExpressionDefinitionContext): void { const cqlCode: CqlExpressionDefinition | undefined = new CqlExpressionDefinitionCreator(ctx).buildDao(); - + console.log("#### build cqlCode expression", cqlCode); if (cqlCode) { this.cqlResult.expressionDefinitions.push(cqlCode); } diff --git a/src/CqlExpressionDefinitionCreator.ts b/src/CqlExpressionDefinitionCreator.ts index f110d86..96fccca 100644 --- a/src/CqlExpressionDefinitionCreator.ts +++ b/src/CqlExpressionDefinitionCreator.ts @@ -30,18 +30,19 @@ export default class CqlExpressionDefinitionCreator extends CreatorBase { protected findChildText(cqlLexerId: number, occurrence = 1, children: ParseTree[] | undefined = this.ctx.children): string | undefined { + return AntlrUtils.findChildText(children, cqlLexerId, occurrence); } + protected findChildTextByTypes(lexerIdArr: number[], + occurrence = 1, + children: ParseTree[] | undefined = this.ctx.children): string | undefined { + + const result: string | undefined = AntlrUtils.findChildTextByTypes(children, lexerIdArr, occurrence); + console.log("Found in Creator Base", result); + return result ; +} + protected abstract build(): T; } diff --git a/test/CqlAntlr.test.ts b/test/CqlAntlr.test.ts index 975d2ae..749bccf 100644 --- a/test/CqlAntlr.test.ts +++ b/test/CqlAntlr.test.ts @@ -1,4 +1,5 @@ import { + simpleDefinitionCql, fhirTestCql, qdmTestCql, cqlWithSyntaxErrors, @@ -14,6 +15,22 @@ import { CqlAntlr } from "../src"; import CqlResult from "../src/dto/CqlResult"; describe("test antlr", () => { + it("parse simple Fhir CQL Definition", () => { + const cqlAntlr = new CqlAntlr(simpleDefinitionCql); + + const cqlResult: CqlResult = cqlAntlr.parse(); + + expect(cqlResult.codes.length).toBe(0); + expect(cqlResult.valueSets.length).toBe(0); + expect(cqlResult.codeSystems.length).toBe(0); + + expect(cqlResult.parameters.length).toBe(0); + + expect(cqlResult.expressionDefinitions.length).toEqual(1); + cqlResult.expressionDefinitions.forEach(def => { + expect(def.name).toBeDefined(); + }) + }); it("parse fhir cql", () => { const cqlAntlr = new CqlAntlr(fhirTestCql); @@ -27,7 +44,10 @@ describe("test antlr", () => { expect(cqlResult.context?.name).toEqual("Patient"); - expect(cqlResult.expressionDefinitions.length).toEqual(7); + expect(cqlResult.expressionDefinitions.length).toEqual(8); + cqlResult.expressionDefinitions.forEach(def => { + expect(def.name).toBeDefined(); + }) expect(cqlResult.retrieves.length).toEqual(1); }); diff --git a/test/testCql.ts b/test/testCql.ts index 761f1b6..24a0db0 100644 --- a/test/testCql.ts +++ b/test/testCql.ts @@ -1,3 +1,13 @@ +const simpleDefinitionCql = `library TJCOverall_FHIR4 version '4.0.000' + + + +//MAT-4844: Test Define with no quotes +define InitialPopulation: + true + +`; + const fhirTestCql = `library TJCOverall_FHIR4 version '4.0.000' using FHIR version '4.0.0' @@ -33,7 +43,10 @@ define "SDE Race": define "SDE Sex": SDE."SDE Sex" - +//MAT-4844: Test Define with no quotes +define InitialPopulation: + true + define "Denominator Exclusion": TJC."Ischemic Stroke Encounters with Discharge Disposition" union TJC."Comfort Measures during Hospitalization" @@ -176,6 +189,7 @@ define FactorialOfFive: ` export { + simpleDefinitionCql, fhirTestCql, qdmTestCql, cqlWithSyntaxErrors, From c794ecb24ba28dc017ba61db2bbb8bc068b7838b Mon Sep 17 00:00:00 2001 From: Greg Akins Date: Wed, 18 Sep 2024 14:29:14 -0400 Subject: [PATCH 15/17] MAT-4844: Added ability to look for tokens with multiple lexical types --- src/CqlAntlrListener.ts | 2 -- src/CqlExpressionVisitor.ts | 1 + test/CqlFinder.test.ts | 14 ++++++++++++++ 3 files changed, 15 insertions(+), 2 deletions(-) create mode 100644 test/CqlFinder.test.ts diff --git a/src/CqlAntlrListener.ts b/src/CqlAntlrListener.ts index db365a1..8419e61 100644 --- a/src/CqlAntlrListener.ts +++ b/src/CqlAntlrListener.ts @@ -74,7 +74,6 @@ export default class CqlAntlrListener implements cqlListener { enterCodeDefinition(ctx: CodeDefinitionContext): void { const cqlCode: CqlCode | undefined = new CqlCodeCreator(ctx).buildDao(); - console.log("#### build cqlCode code", cqlCode); if (cqlCode) { this.cqlResult.codes.push(cqlCode); } @@ -94,7 +93,6 @@ export default class CqlAntlrListener implements cqlListener { enterExpressionDefinition(ctx: ExpressionDefinitionContext): void { const cqlCode: CqlExpressionDefinition | undefined = new CqlExpressionDefinitionCreator(ctx).buildDao(); - console.log("#### build cqlCode expression", cqlCode); if (cqlCode) { this.cqlResult.expressionDefinitions.push(cqlCode); } diff --git a/src/CqlExpressionVisitor.ts b/src/CqlExpressionVisitor.ts index ef560d3..c76f870 100644 --- a/src/CqlExpressionVisitor.ts +++ b/src/CqlExpressionVisitor.ts @@ -20,6 +20,7 @@ export default class CqlExpressionVisitor extends AbstractParseTreeVisitor constructor(private result: CqlResult, private aliases: string[] = []) { super(); + console.log("##### Aliases", aliases); this.finder = new CqlFinder(result, aliases); } diff --git a/test/CqlFinder.test.ts b/test/CqlFinder.test.ts new file mode 100644 index 0000000..e75d387 --- /dev/null +++ b/test/CqlFinder.test.ts @@ -0,0 +1,14 @@ +import { CqlAntlr, CqlResult } from "../src"; +import CqlFinder from "../src/util/CqlFinder"; +import { simpleDefinitionCql } from "./testCql"; + +describe("cql finder", () => { + it("should find a term", () => { + const cqlAntlr = new CqlAntlr(simpleDefinitionCql); + + const cqlResult: CqlResult = cqlAntlr.parse(); + const cqlFinder:CqlFinder = new CqlFinder(cqlResult, []); + + expect(cqlFinder.find("Widget")).toBeFalsy(); + }); +}); \ No newline at end of file From 5c7ba0fcf1e76b41b2c2a64d98457688a715899d Mon Sep 17 00:00:00 2001 From: Greg Akins Date: Wed, 18 Sep 2024 14:57:30 -0400 Subject: [PATCH 16/17] MAT-4844: Bumping Version --- package.json | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/package.json b/package.json index d39d70e..642babd 100644 --- a/package.json +++ b/package.json @@ -1,6 +1,6 @@ { "name": "@madie/cql-antlr-parser", - "version": "1.0.2", + "version": "1.0.3", "description": "Antlr Parsing of CQL in typescript", "publishConfig": { "access": "public" From 3cae4a5166cc8fc1d4ea07d522f1a29a52b3a63d Mon Sep 17 00:00:00 2001 From: Greg Akins Date: Thu, 19 Sep 2024 08:24:29 -0400 Subject: [PATCH 17/17] MAT-4844: Formatting and adding a bit more test coverage --- .eslintrc.js | 16 +++++--- .github/pull_request_template.md | 25 +++++++----- .github/workflows/gitleaks.yml | 31 +++++++------- README.md | 2 + jest.config.js | 5 +-- package.json | 1 + src/AntlrUtils.ts | 58 +++++++++++++++------------ src/CqlAntlr.ts | 2 - src/CqlAntlrListener.ts | 33 ++++++++++----- src/CqlCodeCreator.ts | 4 +- src/CqlCodeValueSystemCreator.ts | 8 ++-- src/CqlContextCreator.ts | 4 +- src/CqlErrorCreator.ts | 6 +-- src/CqlExpressionDefinitionCreator.ts | 33 +++++++++------ src/CqlExpressionVisitor.ts | 24 +++++------ src/CqlIncludeCreator.ts | 4 +- src/CqlParameterCreator.ts | 4 +- src/CqlRetrieveCreator.ts | 4 +- src/CqlVersionCreator.ts | 11 +++-- src/CreatorBase.ts | 40 ++++++++++-------- src/dto/CqlContext.ts | 3 +- src/dto/CqlResult.ts | 1 - src/util/CqlFinder.ts | 13 ++---- test/CqlAntlr.test.ts | 22 +++++----- test/CqlExpressionVisitor.test.ts | 20 ++++----- test/CqlFinder.test.ts | 14 +++---- test/testCql.ts | 8 ++-- 27 files changed, 214 insertions(+), 182 deletions(-) diff --git a/.eslintrc.js b/.eslintrc.js index 3ffd844..142187f 100644 --- a/.eslintrc.js +++ b/.eslintrc.js @@ -5,7 +5,13 @@ module.exports = { tsconfigRootDir: __dirname, project: ["./tsconfig.json"], }, - plugins: ["@typescript-eslint", "eslint-comments", "jest", "promise", "import"], + plugins: [ + "@typescript-eslint", + "eslint-comments", + "jest", + "promise", + "import", + ], extends: [ "airbnb-typescript/base", "plugin:@typescript-eslint/recommended", @@ -22,7 +28,7 @@ module.exports = { }, rules: { // note you must disable the base rule as it can report incorrect errors - "quotes": ["error", "double"], + quotes: ["error", "double"], "no-unused-vars": "off", "@typescript-eslint/no-unused-vars": ["error"], "no-underscore-dangle": "off", @@ -54,10 +60,10 @@ module.exports = { "@typescript-eslint/no-empty-interface": [ "error", { - "allowSingleExtends": true - } + allowSingleExtends: true, + }, ], "class-methods-use-this": "off", - "jest/no-conditional-expect": "off" + "jest/no-conditional-expect": "off", }, }; diff --git a/.github/pull_request_template.md b/.github/pull_request_template.md index 0fc08aa..8225861 100644 --- a/.github/pull_request_template.md +++ b/.github/pull_request_template.md @@ -6,22 +6,25 @@ Jira Ticket: [MAT-0000](https://jira.cms.gov/browse/MAT-0000) ### Summary ### All Submissions -* [ ] This PR has the JIRA linked. -* [ ] Required tests are included -* [ ] No extemporaneous files are included (i.e Complied files or testing results) -* [ ] This PR is in to the **correct branch**. -* [ ] All Documentation as needed for this PR is Complete (or noted in a TODO or other Ticket) -* [ ] Any breaking changes or failing automation are noted by placing a comment on this PR. + +- [ ] This PR has the JIRA linked. +- [ ] Required tests are included +- [ ] No extemporaneous files are included (i.e Complied files or testing results) +- [ ] This PR is in to the **correct branch**. +- [ ] All Documentation as needed for this PR is Complete (or noted in a TODO or other Ticket) +- [ ] Any breaking changes or failing automation are noted by placing a comment on this PR. ### DevSecOps + If there is a question if this PR has a security or infrastructure impact, please contact the Security or DevOps engineer assigned to this project to discuss it further. -* [ ] This PR has NO significant security impact (i.e Changing auth methods, Adding a new user type, Adding a required but vulnerable package) -* [ ] All CDN/Web dependancies are hosted internally (i.e MADiE-Root Repo) +- [ ] This PR has NO significant security impact (i.e Changing auth methods, Adding a new user type, Adding a required but vulnerable package) +- [ ] All CDN/Web dependancies are hosted internally (i.e MADiE-Root Repo) ### Reviewers + By Approving this PR you are attesting to the following: -* Code is maintainable and reusable, reuses existing code and infrastructure where appropriate, and accomplishes the task’s purpose -* The tests appropriately test the new code, including edge cases -* If you have any concerns they are brought up either to the developer assigned, security engineer, or leads +- Code is maintainable and reusable, reuses existing code and infrastructure where appropriate, and accomplishes the task’s purpose +- The tests appropriately test the new code, including edge cases +- If you have any concerns they are brought up either to the developer assigned, security engineer, or leads diff --git a/.github/workflows/gitleaks.yml b/.github/workflows/gitleaks.yml index 015ba54..e2f9326 100644 --- a/.github/workflows/gitleaks.yml +++ b/.github/workflows/gitleaks.yml @@ -4,25 +4,24 @@ on: [push] jobs: build: - runs-on: ubuntu-latest env: REPO: https://github.com/MeasureAuthoringTool/cql-antlr-parser REMOTE_EXCLUDES_URL: https://raw.githubusercontent.com/semanticbits/bmat-gitleaks-automation/master/cql-antlr-parser/gitleaks.toml GITLEAKS_VERSION: v7.5.0 steps: - - name: Execute Gitleaks - run: | - wget ${REMOTE_EXCLUDES_URL} -O gitleaks.toml - wget https://github.com/zricethezav/gitleaks/releases/download/${GITLEAKS_VERSION}/gitleaks-linux-amd64 -O gitleaks - chmod +x gitleaks - echo ${GITHUB_SHA} - echo "gitleaks --repo-url=${REPO} -v --redact --commit=${GITHUB_SHA} --config-path=gitleaks.toml" - ./gitleaks --repo-url=${REPO} -v --redact --commit=${GITHUB_SHA} --config-path=gitleaks.toml - - name: Slack notification - if: failure() - env: - SLACK_WEBHOOK: ${{ secrets.SLACK_WEBHOOK }} - uses: Ilshidur/action-slack@master - with: - args: 'Potential Secrets found in: https://github.com/{{ GITHUB_REPOSITORY }}/commit/{{ GITHUB_SHA }} Link to build with full gitleaks output: https://github.com/{{ GITHUB_REPOSITORY }}/commit/{{ GITHUB_SHA }}/checks' + - name: Execute Gitleaks + run: | + wget ${REMOTE_EXCLUDES_URL} -O gitleaks.toml + wget https://github.com/zricethezav/gitleaks/releases/download/${GITLEAKS_VERSION}/gitleaks-linux-amd64 -O gitleaks + chmod +x gitleaks + echo ${GITHUB_SHA} + echo "gitleaks --repo-url=${REPO} -v --redact --commit=${GITHUB_SHA} --config-path=gitleaks.toml" + ./gitleaks --repo-url=${REPO} -v --redact --commit=${GITHUB_SHA} --config-path=gitleaks.toml + - name: Slack notification + if: failure() + env: + SLACK_WEBHOOK: ${{ secrets.SLACK_WEBHOOK }} + uses: Ilshidur/action-slack@master + with: + args: "Potential Secrets found in: https://github.com/{{ GITHUB_REPOSITORY }}/commit/{{ GITHUB_SHA }} Link to build with full gitleaks output: https://github.com/{{ GITHUB_REPOSITORY }}/commit/{{ GITHUB_SHA }}/checks" diff --git a/README.md b/README.md index 69e6df3..4e9087c 100644 --- a/README.md +++ b/README.md @@ -1,6 +1,8 @@ # cql-antlr-parser + A CQL ANTLR parser written in TypeScript **Usage** + ```typescript import {CqlAntlr, CqlResult} from "cql-antlr-parser"; diff --git a/jest.config.js b/jest.config.js index 92d3e49..35f2e4d 100644 --- a/jest.config.js +++ b/jest.config.js @@ -3,9 +3,6 @@ module.exports = { testEnvironment: "node", roots: ["/src/", "/test/"], modulePathIgnorePatterns: ["/dist/"], - collectCoverageFrom: [ - "src/**/*.ts", - "!**/node_modules/**", - ], + collectCoverageFrom: ["src/**/*.ts", "!**/node_modules/**"], setupFilesAfterEnv: ["jest-extended"], }; diff --git a/package.json b/package.json index 642babd..fee5e03 100644 --- a/package.json +++ b/package.json @@ -14,6 +14,7 @@ "prebuild": "rm -rf dist", "build": "tsc", "generate": "npx antlr4ts generated/cql.g4", + "format": "prettier --write .", "lint": "npx eslint . --fix --ext .js,.ts" }, "main": "dist/index.js", diff --git a/src/AntlrUtils.ts b/src/AntlrUtils.ts index 2a28024..f660011 100644 --- a/src/AntlrUtils.ts +++ b/src/AntlrUtils.ts @@ -1,6 +1,6 @@ -import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; -import {Interval} from "antlr4ts/misc"; -import {ParseTree} from "antlr4ts/tree"; +import { ParserRuleContext } from "antlr4ts/ParserRuleContext"; +import { Interval } from "antlr4ts/misc"; +import { ParseTree } from "antlr4ts/tree"; export default class AntlrUtils { static findText(ctx: ParserRuleContext): string | undefined { @@ -13,26 +13,32 @@ export default class AntlrUtils { return undefined; } - static findChildTextByTypes(children: ParseTree[] | undefined, - lexerType: number[], - occurrence = 1): string | undefined { - let result: string | undefined = undefined; - lexerType.forEach(lexType => { - const foundChild: string | undefined = this.findChildText(children, lexType, occurrence); - if (foundChild) { - console.log("Finding the result", foundChild); - - result = foundChild ; - } - }) - return result; - } + static findChildTextByTypes( + children: ParseTree[] | undefined, + lexerType: number[], + occurrence = 1 + ): string | undefined { + let result: string | undefined = undefined; + lexerType.forEach((lexType) => { + const foundChild: string | undefined = this.findChildText( + children, + lexType, + occurrence + ); + if (foundChild) { + result = foundChild; + } + }); + return result; + } - static findChildText(children: ParseTree[] | undefined, - lexerType: number, - occurrence = 1): string | undefined { + static findChildText( + children: ParseTree[] | undefined, + lexerType: number, + occurrence = 1 + ): string | undefined { if (children && children.length > 0) { - const foundChild = AntlrUtils.findChild(children, lexerType, occurrence); + const foundChild = AntlrUtils.findChild(children, lexerType, occurrence); if (foundChild) { return AntlrUtils.findText(foundChild as ParserRuleContext); } @@ -40,9 +46,11 @@ export default class AntlrUtils { return undefined; } - static findChild(children: ParseTree[] | undefined, - lexerType: number, - occurrence: number): ParseTree | undefined { + static findChild( + children: ParseTree[] | undefined, + lexerType: number, + occurrence: number + ): ParseTree | undefined { if (!children) { return undefined; } @@ -51,7 +59,6 @@ export default class AntlrUtils { return children.find((child: ParseTree) => { if (AntlrUtils.isTargetType(child, lexerType)) { - found += 1; if (found === occurrence) { return true; @@ -63,7 +70,6 @@ export default class AntlrUtils { private static isTargetType(child: ParseTree, targetType: number): boolean { if (child instanceof ParserRuleContext) { - return child.start.type === targetType; } return false; diff --git a/src/CqlAntlr.ts b/src/CqlAntlr.ts index 57c8d90..ff544ed 100644 --- a/src/CqlAntlr.ts +++ b/src/CqlAntlr.ts @@ -10,12 +10,10 @@ class CqlAntlr { constructor(private cql: string) {} parse(): CqlResult { - console.log("Before parse"); const result = CqlAntlr.initCqlResult(); const tree: LibraryContext = this.buildTree(result); const listener: cqlListener = new CqlAntlrListener(result); ParseTreeWalker.DEFAULT.walk(listener, tree); - console.log("After parse", result); /** * Disabled. Only partially implemented and would be * a duplicate of checks performed by the CQL-to-ELM Translator. diff --git a/src/CqlAntlrListener.ts b/src/CqlAntlrListener.ts index 8419e61..113af4c 100644 --- a/src/CqlAntlrListener.ts +++ b/src/CqlAntlrListener.ts @@ -10,7 +10,7 @@ import { ParameterDefinitionContext, RetrieveContext, UsingDefinitionContext, - ValuesetDefinitionContext + ValuesetDefinitionContext, } from "../generated"; import CqlResult from "./dto/CqlResult"; import CqlInclude from "./dto/CqlInclude"; @@ -26,15 +26,14 @@ import CqlParameter from "./dto/CqlParameter"; import CqlContextCreator from "./CqlContextCreator"; import CqlExpressionDefinition from "./dto/CqlExpressionDefinition"; import CqlExpressionDefinitionCreator from "./CqlExpressionDefinitionCreator"; -import {CqlCode} from "./dto"; +import { CqlCode } from "./dto"; import CqlIdentifier from "./dto/CqlIdentifier"; import CqlIdentifierCreator from "./CqlIdentifierCreator"; import CqlRetrieve from "./dto/CqlRetrieve"; import CqlRetrieveCreator from "./CqlRetrieveCreator"; export default class CqlAntlrListener implements cqlListener { - constructor(private cqlResult: CqlResult) { - } + constructor(private cqlResult: CqlResult) {} enterLibraryDefinition(ctx: LibraryDefinitionContext): void { const cqlVersionCreator = new CqlVersionCreator(ctx); @@ -47,7 +46,9 @@ export default class CqlAntlrListener implements cqlListener { } enterIncludeDefinition(ctx: IncludeDefinitionContext): void { - const cqlCode: CqlInclude | undefined = new CqlIncludeCreator(ctx).buildDao(); + const cqlCode: CqlInclude | undefined = new CqlIncludeCreator( + ctx + ).buildDao(); if (cqlCode) { this.cqlResult.includes.push(cqlCode); @@ -65,7 +66,10 @@ export default class CqlAntlrListener implements cqlListener { } enterValuesetDefinition(ctx: ValuesetDefinitionContext): void { - const cqlValueSet: CqlValueSet | undefined = new CqlValueSetSystemCreator(ctx, this.cqlResult.using?.name).buildDao(); + const cqlValueSet: CqlValueSet | undefined = new CqlValueSetSystemCreator( + ctx, + this.cqlResult.using?.name + ).buildDao(); if (cqlValueSet) { this.cqlResult.valueSets.push(cqlValueSet); @@ -80,7 +84,9 @@ export default class CqlAntlrListener implements cqlListener { } enterParameterDefinition(ctx: ParameterDefinitionContext): void { - const cqlCode: CqlParameter | undefined = new CqlParameterCreator(ctx).buildDao(); + const cqlCode: CqlParameter | undefined = new CqlParameterCreator( + ctx + ).buildDao(); if (cqlCode) { this.cqlResult.parameters.push(cqlCode); @@ -92,24 +98,29 @@ export default class CqlAntlrListener implements cqlListener { } enterExpressionDefinition(ctx: ExpressionDefinitionContext): void { - const cqlCode: CqlExpressionDefinition | undefined = new CqlExpressionDefinitionCreator(ctx).buildDao(); + const cqlCode: CqlExpressionDefinition | undefined = + new CqlExpressionDefinitionCreator(ctx).buildDao(); if (cqlCode) { this.cqlResult.expressionDefinitions.push(cqlCode); } } enterAggregateClause(ctx: AggregateClauseContext): void { - const identifier: CqlIdentifier | undefined = new CqlIdentifierCreator(ctx).buildDao(); + const identifier: CqlIdentifier | undefined = new CqlIdentifierCreator( + ctx + ).buildDao(); if (identifier) { this.cqlResult.identifiers.push(identifier); } } - + enterRetrieve(ctx: RetrieveContext): void { if (ctx.terminology() === undefined) { return; } - const cqlRetrieve: CqlRetrieve | undefined = new CqlRetrieveCreator(ctx).buildDao(); + const cqlRetrieve: CqlRetrieve | undefined = new CqlRetrieveCreator( + ctx + ).buildDao(); if (cqlRetrieve) { this.cqlResult.retrieves.push(cqlRetrieve); } diff --git a/src/CqlCodeCreator.ts b/src/CqlCodeCreator.ts index 8314acb..95d7b58 100644 --- a/src/CqlCodeCreator.ts +++ b/src/CqlCodeCreator.ts @@ -1,8 +1,8 @@ -import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; +import { ParserRuleContext } from "antlr4ts/ParserRuleContext"; import CreatorBase from "./CreatorBase"; import CqlCode from "./dto/CqlCode"; import CqlValueSet from "./dto/CqlValueSet"; -import {cqlLexer} from "../generated"; +import { cqlLexer } from "../generated"; export default class CqlCodeCreator extends CreatorBase { constructor(ctx: ParserRuleContext) { diff --git a/src/CqlCodeValueSystemCreator.ts b/src/CqlCodeValueSystemCreator.ts index 5c85e96..088c7a4 100644 --- a/src/CqlCodeValueSystemCreator.ts +++ b/src/CqlCodeValueSystemCreator.ts @@ -1,12 +1,12 @@ -import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; +import { ParserRuleContext } from "antlr4ts/ParserRuleContext"; import CreatorBase from "./CreatorBase"; import CqlValueSet from "./dto/CqlValueSet"; -import {cqlLexer} from "../generated"; +import { cqlLexer } from "../generated"; type StringOrUndefined = undefined | string; export default class CqlValueSetSystemCreator extends CreatorBase { - model: StringOrUndefined + model: StringOrUndefined; constructor(ctx: ParserRuleContext, model: StringOrUndefined) { super(ctx, {} as CqlValueSet); @@ -20,7 +20,7 @@ export default class CqlValueSetSystemCreator extends CreatorBase { this.cqlDao.version = this.findChildText(cqlLexer.STRING, 2); } else { const tokens = this.cqlDao.url?.split("|"); - this.cqlDao.version = tokens?.length === 2 ? tokens[1] : undefined + this.cqlDao.version = tokens?.length === 2 ? tokens[1] : undefined; } this.cqlDao.hits = 0; return this.cqlDao; diff --git a/src/CqlContextCreator.ts b/src/CqlContextCreator.ts index 7580f89..8cc935e 100644 --- a/src/CqlContextCreator.ts +++ b/src/CqlContextCreator.ts @@ -1,6 +1,6 @@ -import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; +import { ParserRuleContext } from "antlr4ts/ParserRuleContext"; import CreatorBase from "./CreatorBase"; -import {cqlLexer} from "../generated"; +import { cqlLexer } from "../generated"; import CqlParameter from "./dto/CqlParameter"; import CqlContext from "./dto/CqlContext"; diff --git a/src/CqlErrorCreator.ts b/src/CqlErrorCreator.ts index bf5a447..87424e5 100644 --- a/src/CqlErrorCreator.ts +++ b/src/CqlErrorCreator.ts @@ -1,4 +1,4 @@ -import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; +import { ParserRuleContext } from "antlr4ts/ParserRuleContext"; import CreatorBase from "./CreatorBase"; import CqlError from "./dto/CqlError"; @@ -7,12 +7,12 @@ export default class CqlErrorCreator extends CreatorBase { super(ctx, {} as CqlError); } - protected processLineInfo(): void { super.processLineInfo(); if (this.cqlDao.stop) { - this.cqlDao.stop.position += (this.ctx.start.stopIndex - this.ctx.start.startIndex); + this.cqlDao.stop.position += + this.ctx.start.stopIndex - this.ctx.start.startIndex; } } diff --git a/src/CqlExpressionDefinitionCreator.ts b/src/CqlExpressionDefinitionCreator.ts index 96fccca..dceff31 100644 --- a/src/CqlExpressionDefinitionCreator.ts +++ b/src/CqlExpressionDefinitionCreator.ts @@ -1,9 +1,9 @@ -import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; -import {ParseTree} from "antlr4ts/tree"; +import { ParserRuleContext } from "antlr4ts/ParserRuleContext"; +import { ParseTree } from "antlr4ts/tree"; import CreatorBase from "./CreatorBase"; import CqlInclude from "./dto/CqlInclude"; import CqlVersionCreator from "./CqlVersionCreator"; -import {cqlLexer} from "../generated"; +import { cqlLexer } from "../generated"; import CqlExpressionDefinition from "./dto/CqlExpressionDefinition"; import AntlrUtils from "./AntlrUtils"; @@ -12,9 +12,11 @@ export default class CqlExpressionDefinitionCreator extends CreatorBase implements cqlVisitor { +export default class CqlExpressionVisitor + extends AbstractParseTreeVisitor + implements cqlVisitor +{ private finder: CqlFinder; constructor(private result: CqlResult, private aliases: string[] = []) { super(); - console.log("##### Aliases", aliases); this.finder = new CqlFinder(result, aliases); } static count = 0; - protected defaultResult(): void { - } - + protected defaultResult(): void {} visit(tree: ParseTree): void { tree.accept(this); @@ -37,7 +37,7 @@ export default class CqlExpressionVisitor extends AbstractParseTreeVisitor visitChildren(/* @NotNull */ node: RuleNode): void { for (let i = 0; i < node.childCount; i += 1) { - this.visit(node.getChild(i)) + this.visit(node.getChild(i)); } } @@ -45,7 +45,7 @@ export default class CqlExpressionVisitor extends AbstractParseTreeVisitor const alias = AntlrUtils.findChildText(ctx.children, cqlLexer.IDENTIFIER); if (alias) { - this.aliases.push(alias) + this.aliases.push(alias); } } diff --git a/src/CqlIncludeCreator.ts b/src/CqlIncludeCreator.ts index 9c32b50..a0f2b30 100644 --- a/src/CqlIncludeCreator.ts +++ b/src/CqlIncludeCreator.ts @@ -1,8 +1,8 @@ -import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; +import { ParserRuleContext } from "antlr4ts/ParserRuleContext"; import CreatorBase from "./CreatorBase"; import CqlInclude from "./dto/CqlInclude"; import CqlVersionCreator from "./CqlVersionCreator"; -import {cqlLexer} from "../generated"; +import { cqlLexer } from "../generated"; export default class CqlIncludeCreator extends CreatorBase { constructor(ctx: ParserRuleContext) { diff --git a/src/CqlParameterCreator.ts b/src/CqlParameterCreator.ts index aa40a82..aeb3e16 100644 --- a/src/CqlParameterCreator.ts +++ b/src/CqlParameterCreator.ts @@ -1,7 +1,7 @@ -import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; +import { ParserRuleContext } from "antlr4ts/ParserRuleContext"; import CreatorBase from "./CreatorBase"; import CqlVersionCreator from "./CqlVersionCreator"; -import {cqlLexer} from "../generated"; +import { cqlLexer } from "../generated"; import CqlParameter from "./dto/CqlParameter"; export default class CqlParameterCreator extends CreatorBase { diff --git a/src/CqlRetrieveCreator.ts b/src/CqlRetrieveCreator.ts index 55abef3..279a0b3 100644 --- a/src/CqlRetrieveCreator.ts +++ b/src/CqlRetrieveCreator.ts @@ -1,6 +1,6 @@ -import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; +import { ParserRuleContext } from "antlr4ts/ParserRuleContext"; import CreatorBase from "./CreatorBase"; -import {cqlLexer} from "../generated"; +import { cqlLexer } from "../generated"; import CqlRetrieve from "./dto/CqlRetrieve"; export default class CqlRetrieveCreator extends CreatorBase { diff --git a/src/CqlVersionCreator.ts b/src/CqlVersionCreator.ts index f48e9f6..14777be 100644 --- a/src/CqlVersionCreator.ts +++ b/src/CqlVersionCreator.ts @@ -1,16 +1,19 @@ -import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; -import {ParseTree} from "antlr4ts/tree"; +import { ParserRuleContext } from "antlr4ts/ParserRuleContext"; +import { ParseTree } from "antlr4ts/tree"; import CreatorBase from "./CreatorBase"; import CqlVersion from "./dto/CqlVersion"; import AntlrUtils from "./AntlrUtils"; -import {cqlLexer} from "../generated"; +import { cqlLexer } from "../generated"; export default class CqlVersionCreator extends CreatorBase { constructor(ctx: ParserRuleContext, cqlVersion?: CqlVersion) { super(ctx, !cqlVersion ? ({} as CqlVersion) : cqlVersion); } - static setNameVersion(children: ParseTree[] | undefined, cqlDao: CqlVersion): void { + static setNameVersion( + children: ParseTree[] | undefined, + cqlDao: CqlVersion + ): void { /* eslint-disable no-param-reassign */ cqlDao.name = AntlrUtils.findChildText(children, cqlLexer.IDENTIFIER); cqlDao.version = AntlrUtils.findChildText(children, cqlLexer.STRING); diff --git a/src/CreatorBase.ts b/src/CreatorBase.ts index c12be0f..37ebdc5 100644 --- a/src/CreatorBase.ts +++ b/src/CreatorBase.ts @@ -1,13 +1,15 @@ -import {ParserRuleContext} from "antlr4ts/ParserRuleContext"; -import {Token} from "antlr4ts/Token"; -import {ParseTree} from "antlr4ts/tree"; +import { ParserRuleContext } from "antlr4ts/ParserRuleContext"; +import { Token } from "antlr4ts/Token"; +import { ParseTree } from "antlr4ts/tree"; import CqlText from "./dto/CqlText"; import AntlrUtils from "./AntlrUtils"; import LineInfo from "./dto/LineInfo"; export default abstract class CreatorBase { - protected constructor(protected ctx: ParserRuleContext, protected cqlDao: T) { - } + protected constructor( + protected ctx: ParserRuleContext, + protected cqlDao: T + ) {} protected processLineInfo(): void { this.cqlDao.start = this.buildLineInfo(this.ctx.start); @@ -24,7 +26,6 @@ export default abstract class CreatorBase { return undefined; } - buildLineInfo(token: Token | undefined): LineInfo | undefined { if (token) { const lineInfo = {} as LineInfo; @@ -40,21 +41,26 @@ export default abstract class CreatorBase { return undefined; } - protected findChildText(cqlLexerId: number, - occurrence = 1, - children: ParseTree[] | undefined = this.ctx.children): string | undefined { - + protected findChildText( + cqlLexerId: number, + occurrence = 1, + children: ParseTree[] | undefined = this.ctx.children + ): string | undefined { return AntlrUtils.findChildText(children, cqlLexerId, occurrence); } - protected findChildTextByTypes(lexerIdArr: number[], + protected findChildTextByTypes( + lexerIdArr: number[], occurrence = 1, - children: ParseTree[] | undefined = this.ctx.children): string | undefined { - - const result: string | undefined = AntlrUtils.findChildTextByTypes(children, lexerIdArr, occurrence); - console.log("Found in Creator Base", result); - return result ; -} + children: ParseTree[] | undefined = this.ctx.children + ): string | undefined { + const result: string | undefined = AntlrUtils.findChildTextByTypes( + children, + lexerIdArr, + occurrence + ); + return result; + } protected abstract build(): T; } diff --git a/src/dto/CqlContext.ts b/src/dto/CqlContext.ts index 211caf9..3f055a1 100644 --- a/src/dto/CqlContext.ts +++ b/src/dto/CqlContext.ts @@ -1,4 +1,3 @@ import CqlText from "./CqlText"; -export default interface CqlContext extends CqlText { -} +export default interface CqlContext extends CqlText {} diff --git a/src/dto/CqlResult.ts b/src/dto/CqlResult.ts index dd0771b..13b3477 100644 --- a/src/dto/CqlResult.ts +++ b/src/dto/CqlResult.ts @@ -25,4 +25,3 @@ export default interface CqlResult { errors: CqlError[]; } - diff --git a/src/util/CqlFinder.ts b/src/util/CqlFinder.ts index 79dfa94..d561389 100644 --- a/src/util/CqlFinder.ts +++ b/src/util/CqlFinder.ts @@ -1,13 +1,10 @@ -import {CqlResult} from "../dto"; +import { CqlResult } from "../dto"; export default class CqlFinder { - - constructor(private result: CqlResult, private aliases: string[]) { - } + constructor(private result: CqlResult, private aliases: string[]) {} find(term: string): boolean { - - if (this.aliases.find(a => a === term)) { + if (this.aliases.find((a) => a === term)) { return true; } @@ -16,7 +13,7 @@ export default class CqlFinder { } for (const i of this.result.includes) { - if( i.called === term) { + if (i.called === term) { i.hits += 1; return true; } @@ -66,6 +63,4 @@ export default class CqlFinder { return false; } - - } diff --git a/test/CqlAntlr.test.ts b/test/CqlAntlr.test.ts index 749bccf..2d5ed5d 100644 --- a/test/CqlAntlr.test.ts +++ b/test/CqlAntlr.test.ts @@ -24,12 +24,12 @@ describe("test antlr", () => { expect(cqlResult.valueSets.length).toBe(0); expect(cqlResult.codeSystems.length).toBe(0); - expect(cqlResult.parameters.length).toBe(0); + expect(cqlResult.parameters.length).toBe(0); expect(cqlResult.expressionDefinitions.length).toEqual(1); - cqlResult.expressionDefinitions.forEach(def => { + cqlResult.expressionDefinitions.forEach((def) => { expect(def.name).toBeDefined(); - }) + }); }); it("parse fhir cql", () => { const cqlAntlr = new CqlAntlr(fhirTestCql); @@ -45,21 +45,25 @@ describe("test antlr", () => { expect(cqlResult.context?.name).toEqual("Patient"); expect(cqlResult.expressionDefinitions.length).toEqual(8); - cqlResult.expressionDefinitions.forEach(def => { + cqlResult.expressionDefinitions.forEach((def) => { expect(def.name).toBeDefined(); - }) + }); expect(cqlResult.retrieves.length).toEqual(1); }); - + it("parse qdm cql", () => { const cqlAntlr = new CqlAntlr(qdmTestCql); const cqlResult: CqlResult = cqlAntlr.parse(); - + expect(cqlResult.using?.name).toBe("QDM"); expect(cqlResult.valueSets.length).toBe(2); - expect(cqlResult.valueSets[0].name).toBe("\"Adolescent depression screening assessment\""); + expect(cqlResult.valueSets[0].name).toBe( + "\"Adolescent depression screening assessment\"" + ); expect(cqlResult.valueSets[0].version).toBeUndefined(); - expect(cqlResult.valueSets[1].name).toBe("\"Adolescent depression screening assessment with version\""); + expect(cqlResult.valueSets[1].name).toBe( + "\"Adolescent depression screening assessment with version\"" + ); expect(cqlResult.valueSets[1].version).toBe("'urn:hl7:version:20240307'"); }); diff --git a/test/CqlExpressionVisitor.test.ts b/test/CqlExpressionVisitor.test.ts index 7160534..4979c97 100644 --- a/test/CqlExpressionVisitor.test.ts +++ b/test/CqlExpressionVisitor.test.ts @@ -2,9 +2,8 @@ import CqlAntlr from "../src/CqlAntlr"; import CqlExpressionVisitor from "../src/CqlExpressionVisitor"; import CqlInclude from "../src/dto/CqlInclude"; import CqlValueSet from "../src/dto/CqlValueSet"; -import {ExpressionDefinitionContext} from "../generated"; -import {CqlResult} from "../src"; - +import { ExpressionDefinitionContext } from "../generated"; +import { CqlResult } from "../src"; const testDefineWithAlias = `define "Antithrombotic Not Given at Discharge": ["MedicationRequest": medication in "Antithrombotic Therapy"] NoAntithromboticDischarge @@ -17,7 +16,6 @@ const testDefineWithAlias = `define "Antithrombotic Not Given at Discharge": and NoAntithromboticDischarge.intent = 'order' `; - const sdeDefine = `define "SDE Sex": SDE."SDE Sex"' `; @@ -59,9 +57,9 @@ describe("test visitor", () => { cqlResult.includes.push(createInclude("FHIRHelpers")); cqlResult.includes.push(createInclude("Global")); - cqlResult.valueSets.push(createValueSet("\"Patient Refusal\"")) - cqlResult.valueSets.push(createValueSet("\"Medical Reason\"")) - cqlResult.valueSets.push(createValueSet("\"Antithrombotic Therapy\"")) + cqlResult.valueSets.push(createValueSet("\"Patient Refusal\"")); + cqlResult.valueSets.push(createValueSet("\"Medical Reason\"")); + cqlResult.valueSets.push(createValueSet("\"Antithrombotic Therapy\"")); const cqlExpressionVisitor = new CqlExpressionVisitor(cqlResult); cqlExpressionVisitor.visit(createAntlrContext(testDefineWithAlias)); @@ -98,20 +96,18 @@ describe("test visitor", () => { expect(cqlResult.errors.length).toEqual(0); }); - it("parse valueset with no errors", () => { const cqlResult = CqlAntlr.initCqlResult(); cqlResult.includes.push(createInclude("FHIRHelpers")); cqlResult.includes.push(createInclude("Global")); - cqlResult.valueSets.push(createValueSet("\"Patient Refusal\"")) - cqlResult.valueSets.push(createValueSet("\"Medical Reason\"")) - cqlResult.valueSets.push(createValueSet("\"Antithrombotic Therapy\"")) + cqlResult.valueSets.push(createValueSet("\"Patient Refusal\"")); + cqlResult.valueSets.push(createValueSet("\"Medical Reason\"")); + cqlResult.valueSets.push(createValueSet("\"Antithrombotic Therapy\"")); const v = new CqlExpressionVisitor(cqlResult); v.visit(createAntlrContext(sdeValueset)); expect(cqlResult.errors.length).toEqual(0); }); - }); diff --git a/test/CqlFinder.test.ts b/test/CqlFinder.test.ts index e75d387..5a1d1c7 100644 --- a/test/CqlFinder.test.ts +++ b/test/CqlFinder.test.ts @@ -3,12 +3,12 @@ import CqlFinder from "../src/util/CqlFinder"; import { simpleDefinitionCql } from "./testCql"; describe("cql finder", () => { - it("should find a term", () => { - const cqlAntlr = new CqlAntlr(simpleDefinitionCql); + it("should find a term", () => { + const cqlAntlr = new CqlAntlr(simpleDefinitionCql); - const cqlResult: CqlResult = cqlAntlr.parse(); - const cqlFinder:CqlFinder = new CqlFinder(cqlResult, []); + const cqlResult: CqlResult = cqlAntlr.parse(); + const cqlFinder: CqlFinder = new CqlFinder(cqlResult, []); - expect(cqlFinder.find("Widget")).toBeFalsy(); - }); -}); \ No newline at end of file + expect(cqlFinder.find("Widget")).toBeFalsy(); + }); +}); diff --git a/test/testCql.ts b/test/testCql.ts index 24a0db0..944fcbf 100644 --- a/test/testCql.ts +++ b/test/testCql.ts @@ -70,7 +70,7 @@ library PreventiveCareScreeningFollowUpPlan version '0.0.000' using QDM version '5.6' valueset "Adolescent depression screening assessment": 'urn:oid:2.16.840.1.113762.1.4.1260.162' valueset "Adolescent depression screening assessment with version": 'urn:oid:2.16.840.1.113762.1.4.1260.162' version 'urn:hl7:version:20240307' -` +`; const cqlWithSyntaxErrors = `library TJCOverall_FHIR4 version '4.0.000' @@ -186,7 +186,7 @@ const aggregateQuery = ` define FactorialOfFive: ({ 1, 2, 3, 4, 5 }) Num aggregate Result starting 1: Result * Num -` +`; export { simpleDefinitionCql, @@ -199,5 +199,5 @@ export { cqlWithUsedContext, cqlFluentFunctions, relatedContextRetrieve, - aggregateQuery -} ; + aggregateQuery, +};